奇异变形杆菌 ChSC1905 菌株的全基因组序列，该菌株携带一种新的 SXT/R391 家族 ICE。
Whole genome sequence of Proteus mirabilis ChSC1905 strain harbouring a new SXT/R391-family ICE.
机构信息
College of Life Sciences, Sichuan University, Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, Animal Disease Prevention and Food Safety Key Laboratory of Sichuan Province, Chengdu, China.
College of Life Sciences, Sichuan University, Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, Animal Disease Prevention and Food Safety Key Laboratory of Sichuan Province, Chengdu, China.
出版信息
J Glob Antimicrob Resist. 2022 Sep;30:279-281. doi: 10.1016/j.jgar.2022.07.004. Epub 2022 Jul 8.
OBJECTIVES
The aim of this study was to characterise the whole genome sequence of a multidrug-resistant (MDR) Proteus mirabilis strain ChSC1905 isolated from a swine farm in China.
METHODS
The genome was sequenced by Illumina NovaSeq and Oxford Nanopore platforms, and it was assembled via Canu v.1.5. The acquired antimicrobial resistance genes (ARGs) were identified by ResFinder. A conjugation experiment was carried out to determine the mobilisation of integrative and conjugative element.
RESULTS
Strain ChSC1905 exhibited a MDR phenotype. The genome of strain ChSC1905 was 4 038 038 bp in length with a GC content of 39.1%, which contained 3645 coding sequences and 110 RNA genes. A total of 23 acquired ARGs were identified, among which 21 ARGs including the clinically important resistance genes bla, cfr, fosA3, and aac(6')-Ib-cr were located on a SXT/R391 integrative and conjugative element (ICE). BLAST analysis showed that this new SXT/R391-family ICE (ICEPmiChnChSC1905 of 143 689 bp) was involved in sequence inversion mediated by ISVsa3 and genetic rearrangement mediated by IS26, and it could be transferred to E. coli EC600.
CONCLUSION
In this study, we report the genome sequence of MDR P. mirabilis strain ChSC1905 that harboured a novel SXT/R391-family ICE (ICEPmiChnChSC1905) involved in genetic rearrangement in China, which promotes the diversity of ICE and should receive more attention.
目的
本研究旨在对一株从中国养猪场分离的多药耐药（MDR）奇异变形杆菌 ChSC1905 菌株进行全基因组测序。
方法
使用 Illumina NovaSeq 和 Oxford Nanopore 平台对基因组进行测序，并通过 Canu v.1.5 进行组装。使用 ResFinder 识别获得的抗生素耐药基因（ARGs）。进行了接合实验以确定整合子和转座子的可移动性。
结果
菌株 ChSC1905 表现出 MDR 表型。菌株 ChSC1905 的基因组长度为 4038038bp，GC 含量为 39.1%，包含 3645 个编码序列和 110 个 RNA 基因。总共鉴定出 23 个获得的 ARGs，其中包括临床重要耐药基因 bla、cfr、fosA3 和 aac(6')-Ib-cr 的 21 个 ARGs，位于 SXT/R391 整合子和转座子（ICE）上。BLAST 分析表明，这种新的 SXT/R391 家族 ICE（143689bp 的 ICEPmiChnChSC1905）涉及由 ISVsa3 介导的序列反转和由 IS26 介导的遗传重排，并且可以转移到大肠杆菌 EC600。
结论
在本研究中，我们报告了多药耐药奇异变形杆菌 ChSC1905 菌株的基因组序列，该菌株携带一种新的 SXT/R391 家族 ICE（ICEPmiChnChSC1905），涉及中国的遗传重排，这促进了 ICE 的多样性，应该得到更多的关注。
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